CombineVariants_ERROR

Hi.
I want to merge two VCF files. Initially I was selected only indels(by select variant option). Now I want to merge these two VCF file which contains only INDELS. But When I run the command, I am getting the same error:

ERROR stack trace

java.lang.NumberFormatException: For input string: "."
at java.lang.NumberFormatException.forInputString(NumberFormatException.java:65)
at java.lang.Integer.parseInt(Integer.java:470)
at java.lang.Integer.valueOf(Integer.java:570)
at org.broadinstitute.sting.utils.codecs.vcf.AbstractVCFCodec.decodeInts(AbstractVCFCodec.java:680)
at org.broadinstitute.sting.utils.codecs.vcf.AbstractVCFCodec.createGenotypeMap(AbstractVCFCodec.java:639)
at org.broadinstitute.sting.utils.codecs.vcf.AbstractVCFCodec$LazyVCFGenotypesParser.parse(AbstractVCFCodec.java:92)
at org.broadinstitute.sting.utils.variantcontext.LazyGenotypesContext.decode(LazyGenotypesContext.java:130)
at org.broadinstitute.sting.utils.variantcontext.LazyGenotypesContext.getGenotypes(LazyGenotypesContext.java:120)
at org.broadinstitute.sting.utils.variantcontext.GenotypesContext.iterator(GenotypesContext.java:461)
at org.broadinstitute.sting.utils.variantcontext.VariantContextUtils.mergeGenotypes(VariantContextUtils.java:853)
at org.broadinstitute.sting.utils.variantcontext.VariantContextUtils.simpleMerge(VariantContextUtils.java:514)
at org.broadinstitute.sting.gatk.walkers.variantutils.CombineVariants.map(CombineVariants.java:292)
at org.broadinstitute.sting.gatk.walkers.variantutils.CombineVariants.map(CombineVariants.java:114)
at org.broadinstitute.sting.gatk.traversals.TraverseLociNano$TraverseLociMap.apply(TraverseLociNano.java:243)
at org.broadinstitute.sting.gatk.traversals.TraverseLociNano$TraverseLociMap.apply(TraverseLociNano.java:231)
at org.broadinstitute.sting.utils.nanoScheduler.NanoScheduler.executeSingleThreaded(NanoScheduler.java:287)
at org.broadinstitute.sting.utils.nanoScheduler.NanoScheduler.execute(NanoScheduler.java:252)
at org.broadinstitute.sting.gatk.traversals.TraverseLociNano.traverse(TraverseLociNano.java:120)
at org.broadinstitute.sting.gatk.traversals.TraverseLociNano.traverse(TraverseLociNano.java:67)
at org.broadinstitute.sting.gatk.traversals.TraverseLociNano.traverse(TraverseLociNano.java:23)
at org.broadinstitute.sting.gatk.executive.LinearMicroScheduler.execute(LinearMicroScheduler.java:74)
at org.broadinstitute.sting.gatk.GenomeAnalysisEngine.execute(GenomeAnalysisEngine.java:281)
at org.broadinstitute.sting.gatk.CommandLineExecutable.execute(CommandLineExecutable.java:113)
at org.broadinstitute.sting.commandline.CommandLineProgram.start(CommandLineProgram.java:237)
at org.broadinstitute.sting.commandline.CommandLineProgram.start(CommandLineProgram.java:147)
at org.broadinstitute.sting.gatk.CommandLineGATK.main(CommandLineGATK.java:94)